{"doi":"10.1002/pro.4792","title":"<scp>UCSF ChimeraX</scp>: Tools for structure building and analysis","abstract":"Advances in computational tools for atomic model building are leading to accurate models of large molecular assemblies seen in electron microscopy, often at challenging resolutions of 3-4 Å. We describe new methods in the UCSF ChimeraX molecular modeling package that take advantage of machine-learning structure predictions, provide likelihood-based fitting in maps, and compute per-residue scores to identify modeling errors. Additional model-building tools assist analysis of mutations, post-translational modifications, and interactions with ligands. We present the latest ChimeraX model-building capabilities, including several community-developed extensions. ChimeraX is available free of charge for noncommercial use at https://www.rbvi.ucsf.edu/chimerax.","journal":"Protein Science","year":2023,"id":314627,"datarank":0.0,"base_score":0.0,"endowment":0.0,"self_citation_contribution":0.0,"citation_network_contribution":0.0,"self_endowment_contribution":0.0,"citer_contribution":0.0,"corpus_percentile":null,"corpus_rank":null,"citation_count":4293,"citer_count":0,"citers_with_citation_signal":0,"citers_with_endowment":0,"datacite_reuse_total":0,"is_dataset":false,"is_dataset_confidence":0.9531,"is_data_producer":false,"deposit_databanks":null,"is_oa":true,"file_count":0,"downloads":0,"has_version_chain":false,"published_date":"2023-01-01","fair_score":null,"fair_percentile":null,"algorithm_id":"datarank_citation_only_1hop_v6","ranking_scope":"data_only","authors":[{"id":30001,"name":"Thomas D. Goddard","orcid":null,"position":1,"is_corresponding":false},{"id":30000,"name":"Eric F. Pettersen","orcid":null,"position":2,"is_corresponding":false},{"id":1015057,"name":"Greg S. Couch","orcid":null,"position":3,"is_corresponding":false},{"id":1013555,"name":"Zachary Pearson","orcid":"0000-0003-2145-5357","position":4,"is_corresponding":false},{"id":54676,"name":"John H. Morris","orcid":"0000-0003-0290-7979","position":5,"is_corresponding":false},{"id":30006,"name":"Thomas E. Ferrin","orcid":"0000-0001-6227-0637","position":6,"is_corresponding":false},{"id":30005,"name":"Elaine C. Meng","orcid":null,"position":0,"is_corresponding":true}],"reference_count":44,"raw_metadata":null,"created_at":"2026-07-19T01:06:02.898877Z","pmid":"37774136","pmcid":null,"fwci":null,"citation_percentile":null,"influential_citations":0,"oa_status":null,"license":null,"views":0,"total_file_size_bytes":0,"version_count":0,"fair_f":null,"fair_a":null,"fair_i":null,"fair_r":null,"fair_zscore":null,"fair_rationale":null,"fair_model":null,"fair_agent_version":null,"fair_fulltext_source":null,"fair_has_llm":null,"fair_computed_at":null,"clinical_trials":[],"software_tools":[],"db_accessions":[],"linked_datasets":[],"topics":[]}